list-of-software
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list-of-software [2021/08/19 08:56] – aorth | list-of-software [2021/09/20 07:50] – aorth | ||
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|bayescan|2.1|'' | |bayescan|2.1|'' | ||
|[[bbmap-software|bbmap]]|38.67|'' | |[[bbmap-software|bbmap]]|38.67|'' | ||
- | |[[bcftools-software|bcftools]]|1.11|'' | + | |[[bcftools-software|bcftools]]|1.13|'' |
|[[beagle-software|beagle]]|3.1.2|'' | |[[beagle-software|beagle]]|3.1.2|'' | ||
|[[beast-software|beast]]|1.10.4|'' | |[[beast-software|beast]]|1.10.4|'' | ||
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|[[falcon-phase-software|falcon-phase]]|git-7c50154e|'' | |[[falcon-phase-software|falcon-phase]]|git-7c50154e|'' | ||
|[[fastANI-software|fastANI]]|1.3|'' | |[[fastANI-software|fastANI]]|1.3|'' | ||
+ | |[[fastp-software|fastp]]|0.22.0|'' | ||
|[[fastPHASE-software|fastPHASE]]|1.4.8|'' | |[[fastPHASE-software|fastPHASE]]|1.4.8|'' | ||
|[[fastqc-software|fastqc]]|0.11.7|'' | |[[fastqc-software|fastqc]]|0.11.7|'' | ||
Line 101: | Line 102: | ||
|[[funannotate-software|funannotate]]|1.8.7|'' | |[[funannotate-software|funannotate]]|1.8.7|'' | ||
|[[gassflow-software|GassFlow ]]|1.0|'' | |[[gassflow-software|GassFlow ]]|1.0|'' | ||
- | |[[gatk-software|GATK ]]|4.0.10.1|'' | + | |[[gatk-software|gatk]]|4.2.2.0|'' |
|[[gapfiller-software|gapfiller]]|1.10|'' | |[[gapfiller-software|gapfiller]]|1.10|'' | ||
|[[geneid-software|geneid]]|1.4.4|'' | |[[geneid-software|geneid]]|1.4.4|'' | ||
|[[genometools-software|genometools]]|1.6.1|'' | |[[genometools-software|genometools]]|1.6.1|'' | ||
+ | |[[genomeworks-software|genomeworks]]|git-baab5668|'' | ||
|[[genscan-software|genscan]]|latest|'' | |[[genscan-software|genscan]]|latest|'' | ||
|[[gffread-software|gffread]]|0.9.6|'' | |[[gffread-software|gffread]]|0.9.6|'' | ||
Line 118: | Line 120: | ||
|[[guidance-software|guidance]]|2.02|'' | |[[guidance-software|guidance]]|2.02|'' | ||
|[[guppy-software|guppy]]|5.0.11|'' | |[[guppy-software|guppy]]|5.0.11|'' | ||
+ | |[[halcyon-software|halcyon]]|0.1.1|'' | ||
|[[hapflk-software|hapflk]]|1.4|'' | |[[hapflk-software|hapflk]]|1.4|'' | ||
|hapmix|2.0|'' | |hapmix|2.0|'' | ||
+ | |[[hclust2-software|hclust2]]|1.0.0|'' | ||
|[[hdf5-software|hdf5]]|1.8.19|'' | |[[hdf5-software|hdf5]]|1.8.19|'' | ||
|[[hmmer-software|hmmer]]|3.3|'' | |[[hmmer-software|hmmer]]|3.3|'' | ||
Line 127: | Line 131: | ||
|[[hisat2-software|hisat2]]|2.1.0|'' | |[[hisat2-software|hisat2]]|2.1.0|'' | ||
|[[htseq-software|htseq]]|0.9.1|'' | |[[htseq-software|htseq]]|0.9.1|'' | ||
- | |[[htslib-software|htslib]]|1.11|'' | + | |[[htslib-software|htslib]]|1.13|'' |
|[[hypo-software|hypo]]|1.0.3|'' | |[[hypo-software|hypo]]|1.0.3|'' | ||
|[[idba-software|idba]]|1.1.2|'' | |[[idba-software|idba]]|1.1.2|'' | ||
Line 140: | Line 144: | ||
|[[interproscan-software|interproscan]]|5.13|'' | |[[interproscan-software|interproscan]]|5.13|'' | ||
|i-tasser|latest|'' | |i-tasser|latest|'' | ||
- | |[[ivar-software|ivar]]|1.3|'' | + | |[[ivar-software|ivar]]|1.3.1|'' |
|[[jellyfish-software|jellyfish]]|2.3.0|'' | |[[jellyfish-software|jellyfish]]|2.3.0|'' | ||
|jMHC|1.5.0929|'' | |jMHC|1.5.0929|'' | ||
Line 172: | Line 176: | ||
|maximus|0.2|'' | |maximus|0.2|'' | ||
|[[mcl-software|mcl]]|14-137|'' | |[[mcl-software|mcl]]|14-137|'' | ||
+ | |[[mcscanx-software|mcscanx]]|git-97e74f40|'' | ||
|[[mecat-software|MECAT]]|git-d04bfa84|'' | |[[mecat-software|MECAT]]|git-d04bfa84|'' | ||
- | |[[medaka-software|medaka]]|0.8.2|'' | + | |[[medaka-software|medaka]]|1.4.3|'' |
|[[megahit-software|megahit]]|1.1.4|'' | |[[megahit-software|megahit]]|1.1.4|'' | ||
|megan|4.70.4|'' | |megan|4.70.4|'' | ||
|[[megax-software|megax]]|10.0.5|'' | |[[megax-software|megax]]|10.0.5|'' | ||
|[[metabat-software|metabat]]|2.12.1|'' | |[[metabat-software|metabat]]|2.12.1|'' | ||
- | |[[metaphlan2-software|metaphlan2]]|2.9.5|'' | + | |[[metaphlan-software|metaphlan]]|3.0.13|'' |
|[[metis-software|metis]]|5.1.0|'' | |[[metis-software|metis]]|5.1.0|'' | ||
|[[migec-software|migec]]|1.2.4a|'' | |[[migec-software|migec]]|1.2.4a|'' | ||
|[[migmap-software|migmap]]|1.0.2|'' | |[[migmap-software|migmap]]|1.0.2|'' | ||
|[[miniasm-software|miniasm]]|0.3|'' | |[[miniasm-software|miniasm]]|0.3|'' | ||
- | |[[minimap2-software|minimap2]]|2.13|'' | + | |[[minimap2-software|minimap2]]|2.22|'' |
|[[minpath-software|MinPath]]|1.0.2|'' | |[[minpath-software|MinPath]]|1.0.2|'' | ||
|[[mira-software# | |[[mira-software# | ||
Line 201: | Line 206: | ||
|[[nanopolish-software|nanopolish]]|0.10.2|'' | |[[nanopolish-software|nanopolish]]|0.10.2|'' | ||
|[[netmhcpan-software|netmhcpan]]|2.8|'' | |[[netmhcpan-software|netmhcpan]]|2.8|'' | ||
- | |[[nextalign-software|nextalign]]|0.1.7|'' | + | |[[nextalign-software|nextalign]]|1.3.0|'' |
- | |[[nextclade-software|nextclade]]|0.12.0|'' | + | |[[nextclade-software|nextclade]]|1.3.0|'' |
|[[nextclip-software|nextclip]]|1.3.1|'' | |[[nextclip-software|nextclip]]|1.3.1|'' | ||
- | |[[nextflow-software|nextflow]]|21.04.1|'' | + | |[[nextflow-software|nextflow]]|21.04.3|'' |
|[[ntcard-software|ntCard]]|1.0.0|'' | |[[ntcard-software|ntCard]]|1.0.0|'' | ||
|[[ngmlr-software|ngmlr]]|0.2.7|'' | |[[ngmlr-software|ngmlr]]|0.2.7|'' | ||
Line 230: | Line 235: | ||
|[[phylip-software|phylip]]|3.696|'' | |[[phylip-software|phylip]]|3.696|'' | ||
|[[phyml-software|phyml]]|3.3.20180621|'' | |[[phyml-software|phyml]]|3.3.20180621|'' | ||
- | |[[picard-software|picard]]|2.25.5|'' | + | |[[picard-software|picard]]|2.26.1|'' |
|[[picrust-software# | |[[picrust-software# | ||
|[[pilon-software|pilon]]|1.23|'' | |[[pilon-software|pilon]]|1.23|'' | ||
Line 247: | Line 252: | ||
|[[provean-software|provean]]|1.1.5|'' | |[[provean-software|provean]]|1.1.5|'' | ||
|[[purge-haplotigs-software|purge_haplotigs]]|1.1.1|'' | |[[purge-haplotigs-software|purge_haplotigs]]|1.1.1|'' | ||
- | |[[python-software|python]]|3.7.10|'' | + | |[[python-software|python]]|3.8.11|'' |
|qdd|3_beta|'' | |qdd|3_beta|'' | ||
|[[qiime-software|qiime]]|1.9.1|'' | |[[qiime-software|qiime]]|1.9.1|'' | ||
Line 271: | Line 276: | ||
|[[rseqc-software|rseqc]]|2.6.4|'' | |[[rseqc-software|rseqc]]|2.6.4|'' | ||
|[[ruby-software|ruby]]|2.2.3|'' | |[[ruby-software|ruby]]|2.2.3|'' | ||
- | |[[samtools-software|samtools]]|1.11|'' | + | |[[samtools-software|samtools]]|1.13|'' |
|[[sailfish-software|sailfish]]|0.9.2|'' | |[[sailfish-software|sailfish]]|0.9.2|'' | ||
|[[salmon-software|salmon]]|1.3.0|'' | |[[salmon-software|salmon]]|1.3.0|'' | ||
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|[[transrate-software|Transrate]]|1.0.3|'' | |[[transrate-software|Transrate]]|1.0.3|'' | ||
|[[trf-software|trf]]|4.0.9|'' | |[[trf-software|trf]]|4.0.9|'' | ||
- | |[[trimmomatic-software|trimmomatic]]|0.38|'' | + | |[[trimmomatic-software|trimmomatic]]|0.39|'' |
|[[trinity-software|trinity]]|v2.11.0|'' | |[[trinity-software|trinity]]|v2.11.0|'' | ||
|[[trinotate-software|trinotate]]|2.0.2|'' | |[[trinotate-software|trinotate]]|2.0.2|'' |
list-of-software.txt · Last modified: 2024/06/19 11:50 by aorth